miRNA display CGI


Results 1 - 20 of 87 are showing below:
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ID Location Perfect MFE.* RefSeq Acc. strand Start Position R_P_ratio# P value
Predicted miRNA align pattern
24965 3' -60.4 NC_005284.1 + 1004 0.67 0.373186
Target:  5'- cUUUCGCCcGGCGCG-GCUgauGGUgaaGCGCu -3'
miRNA:   3'- cGAAGCGGcUCGCGCuCGA---CCG---CGCG- -5'
24965 3' -60.4 NC_005284.1 + 1384 0.67 0.408043
Target:  5'- -aUUgGaCCGAuccGCGCGuGCUGGCGaaaGCc -3'
miRNA:   3'- cgAAgC-GGCU---CGCGCuCGACCGCg--CG- -5'
24965 3' -60.4 NC_005284.1 + 1667 0.69 0.317225
Target:  5'- uGUUUCGCCGugcgaGGCGUGAuGUa-GCGCGCc -3'
miRNA:   3'- -CGAAGCGGC-----UCGCGCU-CGacCGCGCG- -5'
24965 3' -60.4 NC_005284.1 + 4461 0.68 0.364794
Target:  5'- uGCUggagGCCGAGCaaaAGCUGGCuCGCg -3'
miRNA:   3'- -CGAag--CGGCUCGcgcUCGACCGcGCG- -5'
24965 3' -60.4 NC_005284.1 + 4782 0.67 0.39036
Target:  5'- aGCgguacgUCGUgGGGCGCGAGCcuucGaUGCGCu -3'
miRNA:   3'- -CGa-----AGCGgCUCGCGCUCGa---CcGCGCG- -5'
24965 3' -60.4 NC_005284.1 + 6590 0.66 0.435484
Target:  5'- cGCgUgGCCGcuGCGCGAGCUGucaccgcaacGgGCGUc -3'
miRNA:   3'- -CGaAgCGGCu-CGCGCUCGAC----------CgCGCG- -5'
24965 3' -60.4 NC_005284.1 + 6815 0.74 0.12963
Target:  5'- gGCgagGCCGAGgGggcgauucgcacCGAGUUGGCGCGCg -3'
miRNA:   3'- -CGaagCGGCUCgC------------GCUCGACCGCGCG- -5'
24965 3' -60.4 NC_005284.1 + 6974 0.66 0.463961
Target:  5'- aUUUCGUCGugacCGCGuacaUGGCGCGCu -3'
miRNA:   3'- cGAAGCGGCuc--GCGCucg-ACCGCGCG- -5'
24965 3' -60.4 NC_005284.1 + 7012 0.66 0.426218
Target:  5'- cGC-UCGCCGGGC-UGA-CUGGCG-GCc -3'
miRNA:   3'- -CGaAGCGGCUCGcGCUcGACCGCgCG- -5'
24965 3' -60.4 NC_005284.1 + 7684 0.69 0.302441
Target:  5'- aUUUCGgCGAcguacagcgugcGCGUGAGC-GGUGCGCc -3'
miRNA:   3'- cGAAGCgGCU------------CGCGCUCGaCCGCGCG- -5'
24965 3' -60.4 NC_005284.1 + 9223 0.67 0.408043
Target:  5'- ----aGCCGAguGCGCGGGCga-CGCGCc -3'
miRNA:   3'- cgaagCGGCU--CGCGCUCGaccGCGCG- -5'
24965 3' -60.4 NC_005284.1 + 9239 0.66 0.473669
Target:  5'- ---gCGCUGAcGCGCGcGGCgGGCG-GCa -3'
miRNA:   3'- cgaaGCGGCU-CGCGC-UCGaCCGCgCG- -5'
24965 3' -60.4 NC_005284.1 + 9359 0.7 0.261293
Target:  5'- ---gCGaCGGGCGCGAGCgcgaGGCuuGCGCa -3'
miRNA:   3'- cgaaGCgGCUCGCGCUCGa---CCG--CGCG- -5'
24965 3' -60.4 NC_005284.1 + 9643 0.69 0.301716
Target:  5'- gGCUUCagcgcagGCCGAGCucgcgggcauGCGAGCgauGCGCGa -3'
miRNA:   3'- -CGAAG-------CGGCUCG----------CGCUCGac-CGCGCg -5'
24965 3' -60.4 NC_005284.1 + 9744 0.74 0.148205
Target:  5'- aGCUU-GCCGaAGCGCGGGCggucgaGGCgacgGCGCa -3'
miRNA:   3'- -CGAAgCGGC-UCGCGCUCGa-----CCG----CGCG- -5'
24965 3' -60.4 NC_005284.1 + 9792 0.73 0.164778
Target:  5'- cGCUUC-CUGaAGCGUGAGCUuGUGCGUa -3'
miRNA:   3'- -CGAAGcGGC-UCGCGCUCGAcCGCGCG- -5'
24965 3' -60.4 NC_005284.1 + 10026 0.66 0.426218
Target:  5'- uGCgcaaGCCGAGCGUGA--UGuCGCGCu -3'
miRNA:   3'- -CGaag-CGGCUCGCGCUcgACcGCGCG- -5'
24965 3' -60.4 NC_005284.1 + 10642 0.72 0.178282
Target:  5'- aGCggCGgCGAagcgcuGCGCGAGgaaCUGGUGCGCg -3'
miRNA:   3'- -CGaaGCgGCU------CGCGCUC---GACCGCGCG- -5'
24965 3' -60.4 NC_005284.1 + 11707 0.67 0.40894
Target:  5'- aGUUUCGCCGu-CGaCGGGacgaacugacgaagGGCGCGCg -3'
miRNA:   3'- -CGAAGCGGCucGC-GCUCga------------CCGCGCG- -5'
24965 3' -60.4 NC_005284.1 + 11804 0.67 0.41707
Target:  5'- ----gGCCGAgGCG-GAGCaGGuCGCGCg -3'
miRNA:   3'- cgaagCGGCU-CGCgCUCGaCC-GCGCG- -5' 
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Note:
      When operating RNAhybrid, the pipeline first calculates the perfect minimum free energy (Perfect mfe *) of a putative miRNA when the entire putative miRNA binds to a perfectly complementary target site, then it calculates the minimum free energy of RNA duplex (mfe of the miRNA/mRNA duplex), abbreviated as Rd_mfe. An alignment for which the Rd_mfe to its correspondent Perfect mfe ratio (R_P_ratio #) is more than 66% is regarded as a positive alignment as described by Krek et al. (21). The P_value is calculated by RNAhybrid.

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TDL, Institute of Biomedical Science, Academia Sinica, Taipei, Taiwan.
Copyright © 2007 TDL. All rights reserved.